Analysis of the algorithm: From rankings to backup genes.

Ranking section

For each of the affected genes present in the list, a ranking with the score and percentile of every possible gene was obtained. Once this was done, the position for every known backup gene was obtained and the statistical descriptor of all the values calculated.

Table 1. Backup position values for every kernel and net before integration.

Net Kernel Elements Min Max Average Standard_Deviation
biological_process ct 1648 0.0 1.0 0.514 0.285
biological_process el 1648 0.0 1.0 0.953 0.211
biological_process ka 1648 0.0 1.0 0.953 0.211
biological_process node2vec 1648 0.0 0.999 0.502 0.264
biological_process rf 1648 0.0 1.0 0.953 0.211
cellular_component ct 1649 0.0 1.0 0.437 0.309
cellular_component el 1649 0.0 1.0 0.707 0.424
cellular_component ka 1649 0.0 1.0 0.911 0.283
cellular_component node2vec 1649 0.0 0.999 0.507 0.331
cellular_component rf 1649 0.0 1.0 0.703 0.429
disease ct 1461 0.0 1.0 0.597 0.324
disease el 1461 0.0 1.0 0.783 0.411
disease ka 1461 0.0 1.0 0.798 0.401
disease node2vec 1461 0.0 1.0 0.416 0.31
disease rf 1461 0.0 1.0 0.783 0.411
genetic_interaction_weighted ct 1668 0.0 1.0 0.343 0.268
genetic_interaction_weighted el 1668 0.0 1.0 0.396 0.338
genetic_interaction_weighted ka 1668 0.0 1.0 0.928 0.258
genetic_interaction_weighted node2vec 1668 0.0 0.999 0.412 0.304
genetic_interaction_weighted rf 1668 0.0 1.0 0.382 0.322
molecular_function ct 1634 0.0 1.0 0.485 0.297
molecular_function el 1634 0.0 1.0 0.86 0.337
molecular_function ka 1634 0.0 1.0 0.915 0.273
molecular_function rf 1634 0.0 1.0 0.859 0.339
pathway ct 653 0.001 1.0 0.977 0.139
pathway el 653 0.001 1.0 0.865 0.341
pathway ka 653 0.001 1.0 0.869 0.338
pathway node2vec 653 0.0 0.997 0.503 0.307
pathway rf 653 0.001 1.0 0.865 0.341
phenotype ct 1480 0.0 1.0 0.604 0.333
phenotype el 1480 0.0 1.0 0.726 0.445
phenotype ka 1480 0.0 1.0 0.737 0.439
phenotype node2vec 1480 0.0 1.0 0.413 0.33
phenotype rf 1480 0.0 1.0 0.726 0.445
protein_interaction ct 1664 0.0 1.0 0.069 0.165
protein_interaction el 1664 0.0 1.0 0.06 0.148
protein_interaction ka 1664 0.0 1.0 0.305 0.456
protein_interaction node2vec 1664 0.0 0.992 0.127 0.198
protein_interaction rf 1664 0.0 1.0 0.061 0.146

Table 2. Backup position values for every kernel after integration

Integration Kernel Elements Min Max Average Standard_Deviation
integration_mean_by_presence ct 1676 0.0 1.0 0.395 0.239
integration_mean_by_presence el 1676 0.0 1.0 0.063 0.147
integration_mean_by_presence ka 1676 0.0 1.0 0.27 0.437
integration_mean_by_presence rf 1676 0.0 1.0 0.104 0.188
mean ct 1676 0.0 1.0 0.358 0.299
mean el 1676 0.0 1.0 0.059 0.143
mean ka 1676 0.0 1.0 0.27 0.438
mean rf 1676 0.0 1.0 0.075 0.149

Backup Pairs Coverage By Layer

CDF plots of non integrated kernels

CDF plots of integrated kernels